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Table 2 Top 50 methylated adipose loci in the highly burdened veterans, ordered by q-value

From: DNA methylation in the adipose tissue and whole blood of Agent Orange-exposed Operation Ranch Hand veterans: a pilot study

CpG

Chromosome

Gene

Regression Coeff.

pval

qval

cg18447419

5

SLC9A3

−0.0951

1.07E-07

0.052

cg04350571

8

LYNX1

−0.0201

5.97E-07

0.100

cg04939944

7

TNRC18

−0.0302

6.20E-07

0.100

cg26351451

4

KIAA1239

0.0364

1.10E-06

0.134

cg10831901

20

LOC149837

−0.0773

1.44E-06

0.140

cg07327335

2

PP14571,GPC1

−0.0466

1.91E-06

0.155

cg09130535

11

ADRBK1

−0.0197

3.11E-06

0.213

cg14633910

6

SYCP2L

−0.0253

4.40E-06

0.213

cg25679766

6

 

0.0315

4.43E-06

0.213

cg18584639

5

 

0.0346

4.54E-06

0.213

cg23045716

4

LOC100130872,LOC100130872-SPON2

0.0227

5.10E-06

0.213

cg21726840

19

PRAM1

0.0237

5.26E-06

0.213

cg26132511

6

ZFAND3

0.0231

8.33E-06

0.292

cg12520727

11

CLPB

−0.0226

8.78E-06

0.292

cg01026256

3

VWA5B2,MIR1224

−0.0441

9.11E-06

0.292

cg13983779

9

 

−0.0245

9.63E-06

0.292

cg06647068

12

CHST11

−0.0341

1.14E-05

0.314

cg10422455

11

MRGPRX2

0.0252

1.16E-05

0.314

cg05361530

16

 

0.0217

1.31E-05

0.320

cg07392385

10

SORCS1

−0.0327

1.34E-05

0.320

cg13689342

21

 

0.0202

1.42E-05

0.320

cg09977640

17

 

−0.0291

1.55E-05

0.320

cg13905238

3

 

−0.0310

1.55E-05

0.320

cg05060534

13

TFDP1

−0.0140

1.61E-05

0.320

cg16156617

6

SLC17A4

0.0212

1.67E-05

0.320

cg09897374

6

 

0.0364

1.72E-05

0.320

cg17094014

6

MDFI

−0.0219

1.88E-05

0.338

cg07325692

7

 

0.0268

2.08E-05

0.351

cg25195158

12

 

−0.0274

2.15E-05

0.351

cg18099408

3

STAB1

0.0304

2.22E-05

0.351

cg20266320

1

 

−0.0330

2.31E-05

0.351

cg26284544

19

SNAPC2

−0.0678

2.38E-05

0.351

cg04307083

4

HOPX

0.0190

2.38E-05

0.351

cg09167779

5

MCC

0.0200

2.48E-05

0.354

cg13731106

9

 

0.0257

2.78E-05

0.358

cg21207003

3

QTRTD1

−0.0198

2.82E-05

0.358

cg10891482

11

MS4A8B

0.0226

3.01E-05

0.358

cg01540102

16

DOK4

−0.0285

3.03E-05

0.358

cg11404049

1

CASP9

−0.0141

3.10E-05

0.358

cg08644276

2

 

0.0265

3.12E-05

0.358

cg16763089

20

LOC149837

−0.0868

3.17E-05

0.358

cg15791105

12

COL2A1

0.0159

3.18E-05

0.358

cg25965864

12

LRRC23

−0.0235

3.25E-05

0.358

cg07860645

6

DAAM2

−0.0234

3.37E-05

0.358

cg16673904

17

SHBG

0.0199

3.39E-05

0.358

cg23477257

7

PHTF2

0.0214

3.39E-05

0.358

cg05053979

14

FOXN3

−0.0352

3.59E-05

0.365

cg01330280

6

HIST1H3H,HIST1H2BL

−0.0547

3.65E-05

0.365

cg15147215

3

STAB1

0.0218

3.83E-05

0.365

cg09357935

11

SLC6A5

−0.0453

3.85E-05

0.365

  1. Data generated from a linear model with empirical Bayes estimation, which we used for the adipose tissue DNA methylation beta value comparisons between the Ranch Hand veterans with high serum TCDD levels (n = 11) and the control group (n = 12). The q-value was calculated using the Benjamini-Hochberg method. The regression coefficient identifies the direction of methylation change between the burden groups and was determined via the model we constructed. Genes associated with each CpG are also given in the table
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Environmental Health

ISSN: 1476-069X